[R] lme4 install trouble

[Prof Brian Ripley]

The first problem is an out-of-date Matrix install, and I am pretty sure 
the second is too since lme4 gets headers from the installed Matrix. It's 
possible that you installed Matrix somewhere that is not in the default 
.libPaths(), in which case you need to set R_LIBS appropriately when 
installing.

Try

R --vanilla
.libPaths()
library(Matrix)
searchpaths() # and look where Matrix came from.
sessionInfo() # and check the Matrix version
packageDescription("Matrix") # and check the Built: line contains 2.6.0


On Thu, 11 Oct 2007, David Reitter wrote:

> After upgrading to R 2.6.0, I'm having trouble running lmer:
>
> model <-  lmer(primed ~ log(dist.time)*role + 1|target.utt,
> data=data.utts)
> Error in UseMethod("as.logical") : no applicable method for "as.logical"
>
> So I thought I'd upgrade lme4 to the latest version, but
> unfortunately the compilation fails - perhaps there's a missing
> #include:
>
> R CMD INSTALL -l ~/usr/lib/R lme4_0.99875-8.tar.gz
> * Installing *source* package 'lme4' ...
> ** libs
> gcc -std=gnu99 -I/home/dreitter/usr/lib/R/include -I/home/dreitter/
> usr/lib/R/include  -I/usr/local/include -I"/home/dreitter/usr/lib/R/
> library/Matrix/include"   -fpic  -g -O2 -c glmer.c -o glmer.o
> glmer.c: In function ‘internal_Gaussian_deviance’:
> glmer.c:185: error: ‘CHM_SP’ undeclared (first use in this function)
> glmer.c:185: error: (Each undeclared identifier is reported only once
> glmer.c:185: error: for each function it appears in.)
> glmer.c:185: error: expected ‘;’ before ‘Lm’
> glmer.c:186: error: ‘CHM_FR’ undeclared (first use in this function)
> glmer.c:186: error: expected ‘;’ before ‘Lcp’
> glmer.c:189: error: ‘CHM_DN’ undeclared (first use in this function)
> glmer.c:189: error: expected ‘;’ before ‘Ltb’
> glmer.c:195: error: ‘Lcp’ undeclared (first use in this function)
> glmer.c:196: error: ‘Lm’ undeclared (first use in this function)
> glmer.c:197: error: ‘chb’ undeclared (first use in this function)
> glmer.c:197: error: ‘Ltb’ undeclared (first use in this function)
> glmer.c: In function ‘internal_bhat’:
> glmer.c:396: error: ‘CHM_FR’ undeclared (first use in this function)
> glmer.c:396: error: expected ‘;’ before ‘L’
> glmer.c:403: error: ‘L’ undeclared (first use in this function)
> glmer.c: In function ‘glmer_MCMCsamp’:
> glmer.c:657: error: ‘CHM_FR’ undeclared (first use in this function)
> glmer.c:657: error: expected ‘;’ before ‘L’
> glmer.c:680: error: ‘L’ undeclared (first use in this function)
> make: *** [glmer.o] Error 1
> ERROR: compilation failed for package 'lme4'
>
> I've installed Matrix_0.999375-3 and lattice_0.16-5.
>
> Any pointers would be appreciated.
>
>
> --
> David Reitter
> ICCS/HCRC, Informatics, University of Edinburgh
> http://www.david-reitter.com
>
> ______________________________________________
> R-help at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>

-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595